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misnomer001

arm_mba sintashta fail

misnomer001
Jan 21st, 2020
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  1. allsnps: YES
  2. ## qpAdm version: 810
  3. seed: 1989117974
  4.  
  5. left pops:
  6. Armenia_MBA.SG
  7. Caucasus_Kura_Araxes
  8. Sintashta_MLBA
  9.  
  10. right pops:
  11. Sarazm_EN
  12. Ganj_Dareh_N
  13. PPN
  14. Anatolia_N
  15. Iberia_MN
  16. CHG
  17. EEHG
  18. WEHG
  19. WSHG
  20. Onge.DG
  21. Russia_Shamanka_EN.SG
  22. Steppe_Eneolithic
  23. Caucasus_Eneolithic
  24. Kazakhstan_Botai.SG
  25.  
  26. 0 Armenia_MBA.SG 5
  27. 1 Caucasus_Kura_Araxes 4
  28. 2 Sintashta_MLBA 37
  29. 3 Sarazm_EN 2
  30. 4 Ganj_Dareh_N 7
  31. 5 PPN 8
  32. 6 Anatolia_N 22
  33. 7 Iberia_MN 4
  34. 8 CHG 2
  35. 9 EEHG 4
  36. 10 WEHG 36
  37. 11 WSHG 3
  38. 12 Onge.DG 2
  39. 13 Russia_Shamanka_EN.SG 10
  40. 14 Steppe_Eneolithic 3
  41. 15 Caucasus_Eneolithic 3
  42. 16 Kazakhstan_Botai.SG 3
  43. jackknife block size: 0.050
  44. snps: 1150477 indivs: 155
  45. number of blocks for block jackknife: 552
  46. ## ncols: 1150477
  47. coverage: Armenia_MBA.SG 1062966
  48. coverage: Caucasus_Kura_Araxes 967288
  49. coverage: Sintashta_MLBA 1128781
  50. coverage: Sarazm_EN 867960
  51. coverage: Ganj_Dareh_N 1029695
  52. coverage: PPN 835499
  53. coverage: Anatolia_N 1134099
  54. coverage: Iberia_MN 967760
  55. coverage: CHG 1149558
  56. coverage: EEHG 1029995
  57. coverage: WEHG 1141246
  58. coverage: WSHG 858019
  59. coverage: Onge.DG 1120748
  60. coverage: Russia_Shamanka_EN.SG 1149998
  61. coverage: Steppe_Eneolithic 1017729
  62. coverage: Caucasus_Eneolithic 784983
  63. coverage: Kazakhstan_Botai.SG 1149870
  64. dof (jackknife): 465.896
  65. numsnps used: 1150477
  66. codimension 1
  67. f4info:
  68. f4rank: 1 dof: 12 chisq: 22.402 tail: 0.0332515506 dofdiff: 14 chisqdiff: -22.402 taildiff: 1
  69. B:
  70. scale 1.000
  71. Ganj_Dareh_N -0.193
  72. PPN 0.040
  73. Anatolia_N 0.283
  74. Iberia_MN 0.682
  75. CHG -0.083
  76. EEHG 1.771
  77. WEHG 1.986
  78. WSHG 1.424
  79. Onge.DG 0.442
  80. Russia_Shamanka_EN.SG 0.723
  81. Steppe_Eneolithic 0.814
  82. Caucasus_Eneolithic -0.120
  83. Kazakhstan_Botai.SG 1.380
  84. A:
  85. scale 586.496
  86. Caucasus_Kura_Araxes -0.391
  87. Sintashta_MLBA 1.359
  88.  
  89.  
  90. full rank
  91. f4info:
  92. f4rank: 2 dof: 0 chisq: 0.000 tail: 1 dofdiff: 12 chisqdiff: 22.402 taildiff: 0.0332515506
  93. B:
  94. scale 1.000 1.000
  95. Ganj_Dareh_N -0.192 1.564
  96. PPN 0.018 0.888
  97. Anatolia_N 0.272 -0.334
  98. Iberia_MN 0.679 0.003
  99. CHG -0.117 0.057
  100. EEHG 1.774 0.119
  101. WEHG 1.980 -1.399
  102. WSHG 1.426 -1.405
  103. Onge.DG 0.427 0.381
  104. Russia_Shamanka_EN.SG 0.718 1.262
  105. Steppe_Eneolithic 0.821 -1.048
  106. Caucasus_Eneolithic -0.132 0.027
  107. Kazakhstan_Botai.SG 1.386 1.694
  108. A:
  109. scale 602.085 5464.239
  110. Caucasus_Kura_Araxes -0.499 -1.201
  111. Sintashta_MLBA 1.323 -0.747
  112.  
  113.  
  114. best coefficients: 0.776 0.224
  115. Jackknife mean: 0.776006311 0.223993689
  116. std. errors: 0.027 0.027
  117.  
  118. error covariance (* 1000000)
  119. 749 -749
  120. -749 749
  121.  
  122.  
  123. summ: Armenia_MBA.SG 2 0.033252 0.776 0.224 749 -749 749
  124.  
  125. fixed pat wt dof chisq tail prob
  126. 00 0 12 22.402 0.0332516 0.776 0.224
  127. 01 1 13 78.042 2.57217e-11 1.000 0.000
  128. 10 1 13 876.729 0 0.000 1.000
  129. best pat: 00 0.0332516 - -
  130. best pat: 01 2.57217e-11 chi(nested): 55.640 p-value for nested model: 8.70416e-14
  131.  
  132. coeffs: 0.776 0.224
  133.  
  134. ## dscore:: f_4(Base, Fit, Rbase, right2)
  135. ## genstat:: f_4(Base, Fit, right1, right2)
  136.  
  137. details: Caucasus_Kura_Araxes Ganj_Dareh_N -0.000407 -1.461099
  138. details: Sintashta_MLBA Ganj_Dareh_N -0.000748 -3.310877
  139. dscore: Ganj_Dareh_N f4: -0.000484 Z: -1.916007
  140.  
  141. details: Caucasus_Kura_Araxes PPN -0.000392 -1.329206
  142. details: Sintashta_MLBA PPN -0.000184 -0.748299
  143. dscore: PPN f4: -0.000345 Z: -1.298838
  144.  
  145. details: Caucasus_Kura_Araxes Anatolia_N -0.000386 -1.352055
  146. details: Sintashta_MLBA Anatolia_N 0.000534 2.386614
  147. dscore: Anatolia_N f4: -0.000181 Z: -0.707532
  148.  
  149. details: Caucasus_Kura_Araxes Iberia_MN -0.000733 -2.506693
  150. details: Sintashta_MLBA Iberia_MN 0.001425 5.837378
  151. dscore: Iberia_MN f4: -0.000251 Z: -0.956634
  152.  
  153. details: Caucasus_Kura_Araxes CHG -0.000099 -0.317005
  154. details: Sintashta_MLBA CHG -0.000377 -1.475682
  155. dscore: CHG f4: -0.000161 Z: -0.575958
  156.  
  157. details: Caucasus_Kura_Araxes EEHG -0.001638 -5.090174
  158. details: Sintashta_MLBA EEHG 0.003840 14.484073
  159. dscore: EEHG f4: -0.000414 Z: -1.437821
  160.  
  161. details: Caucasus_Kura_Araxes WEHG -0.001541 -5.245913
  162. details: Sintashta_MLBA WEHG 0.004448 18.360683
  163. dscore: WEHG f4: -0.000202 Z: -0.770709
  164.  
  165. details: Caucasus_Kura_Araxes WSHG -0.001019 -3.402397
  166. details: Sintashta_MLBA WSHG 0.003272 13.426447
  167. dscore: WSHG f4: -0.000059 Z: -0.220411
  168.  
  169. details: Caucasus_Kura_Araxes Onge.DG -0.000682 -2.192172
  170. details: Sintashta_MLBA Onge.DG 0.000758 2.826851
  171. dscore: Onge.DG f4: -0.000360 Z: -1.270459
  172.  
  173. details: Caucasus_Kura_Araxes Russia_Shamanka_EN.SG -0.001101 -3.826507
  174. details: Sintashta_MLBA Russia_Shamanka_EN.SG 0.001293 5.477456
  175. dscore: Russia_Shamanka_EN.SG f4: -0.000566 Z: -2.172213
  176.  
  177. details: Caucasus_Kura_Araxes Steppe_Eneolithic -0.000626 -2.145732
  178. details: Sintashta_MLBA Steppe_Eneolithic 0.001896 8.030978
  179. dscore: Steppe_Eneolithic f4: -0.000063 Z: -0.241434
  180.  
  181. details: Caucasus_Kura_Araxes Caucasus_Eneolithic -0.000089 -0.277975
  182. details: Sintashta_MLBA Caucasus_Eneolithic -0.000371 -1.460255
  183. dscore: Caucasus_Eneolithic f4: -0.000152 Z: -0.529810
  184.  
  185. details: Caucasus_Kura_Araxes Kazakhstan_Botai.SG -0.001678 -5.566698
  186. details: Sintashta_MLBA Kazakhstan_Botai.SG 0.002759 11.190318
  187. dscore: Kazakhstan_Botai.SG f4: -0.000686 Z: -2.521481
  188.  
  189. gendstat: Sarazm_EN Ganj_Dareh_N -1.916
  190. gendstat: Sarazm_EN PPN -1.299
  191. gendstat: Sarazm_EN Anatolia_N -0.708
  192. gendstat: Sarazm_EN Iberia_MN -0.957
  193. gendstat: Sarazm_EN CHG -0.576
  194. gendstat: Sarazm_EN EEHG -1.438
  195. gendstat: Sarazm_EN WEHG -0.771
  196. gendstat: Sarazm_EN WSHG -0.220
  197. gendstat: Sarazm_EN Onge.DG -1.270
  198. gendstat: Sarazm_EN Russia_Shamanka_EN.SG -2.172
  199. gendstat: Sarazm_EN Steppe_Eneolithic -0.241
  200. gendstat: Sarazm_EN Caucasus_Eneolithic -0.530
  201. gendstat: Sarazm_EN Kazakhstan_Botai.SG -2.521
  202. gendstat: Ganj_Dareh_N PPN 0.532
  203. gendstat: Ganj_Dareh_N Anatolia_N 1.433
  204. gendstat: Ganj_Dareh_N Iberia_MN 0.953
  205. gendstat: Ganj_Dareh_N CHG 1.279
  206. gendstat: Ganj_Dareh_N EEHG 0.252
  207. gendstat: Ganj_Dareh_N WEHG 1.195
  208. gendstat: Ganj_Dareh_N WSHG 1.534
  209. gendstat: Ganj_Dareh_N Onge.DG 0.460
  210. gendstat: Ganj_Dareh_N Russia_Shamanka_EN.SG -0.360
  211. gendstat: Ganj_Dareh_N Steppe_Eneolithic 1.853
  212. gendstat: Ganj_Dareh_N Caucasus_Eneolithic 1.244
  213. gendstat: Ganj_Dareh_N Kazakhstan_Botai.SG -0.776
  214. gendstat: PPN Anatolia_N 0.880
  215. gendstat: PPN Iberia_MN 0.421
  216. gendstat: PPN CHG 0.645
  217. gendstat: PPN EEHG -0.236
  218. gendstat: PPN WEHG 0.624
  219. gendstat: PPN WSHG 1.001
  220. gendstat: PPN Onge.DG -0.053
  221. gendstat: PPN Russia_Shamanka_EN.SG -0.894
  222. gendstat: PPN Steppe_Eneolithic 1.083
  223. gendstat: PPN Caucasus_Eneolithic 0.661
  224. gendstat: PPN Kazakhstan_Botai.SG -1.197
  225. gendstat: Anatolia_N Iberia_MN -0.422
  226. gendstat: Anatolia_N CHG 0.081
  227. gendstat: Anatolia_N EEHG -0.946
  228. gendstat: Anatolia_N WEHG -0.131
  229. gendstat: Anatolia_N WSHG 0.488
  230. gendstat: Anatolia_N Onge.DG -0.727
  231. gendstat: Anatolia_N Russia_Shamanka_EN.SG -1.930
  232. gendstat: Anatolia_N Steppe_Eneolithic 0.556
  233. gendstat: Anatolia_N Caucasus_Eneolithic 0.115
  234. gendstat: Anatolia_N Kazakhstan_Botai.SG -2.178
  235. gendstat: Iberia_MN CHG 0.335
  236. gendstat: Iberia_MN EEHG -0.630
  237. gendstat: Iberia_MN WEHG 0.258
  238. gendstat: Iberia_MN WSHG 0.736
  239. gendstat: Iberia_MN Onge.DG -0.410
  240. gendstat: Iberia_MN Russia_Shamanka_EN.SG -1.383
  241. gendstat: Iberia_MN Steppe_Eneolithic 0.821
  242. gendstat: Iberia_MN Caucasus_Eneolithic 0.369
  243. gendstat: Iberia_MN Kazakhstan_Botai.SG -1.720
  244. gendstat: CHG EEHG -0.835
  245. gendstat: CHG WEHG -0.160
  246. gendstat: CHG WSHG 0.353
  247. gendstat: CHG Onge.DG -0.674
  248. gendstat: CHG Russia_Shamanka_EN.SG -1.506
  249. gendstat: CHG Steppe_Eneolithic 0.366
  250. gendstat: CHG Caucasus_Eneolithic 0.030
  251. gendstat: CHG Kazakhstan_Botai.SG -1.844
  252. gendstat: EEHG WEHG 0.987
  253. gendstat: EEHG WSHG 1.490
  254. gendstat: EEHG Onge.DG 0.180
  255. gendstat: EEHG Russia_Shamanka_EN.SG -0.591
  256. gendstat: EEHG Steppe_Eneolithic 1.436
  257. gendstat: EEHG Caucasus_Eneolithic 0.874
  258. gendstat: EEHG Kazakhstan_Botai.SG -1.163
  259. gendstat: WEHG WSHG 0.628
  260. gendstat: WEHG Onge.DG -0.620
  261. gendstat: WEHG Russia_Shamanka_EN.SG -1.766
  262. gendstat: WEHG Steppe_Eneolithic 0.688
  263. gendstat: WEHG Caucasus_Eneolithic 0.189
  264. gendstat: WEHG Kazakhstan_Botai.SG -2.308
  265. gendstat: WSHG Onge.DG -1.085
  266. gendstat: WSHG Russia_Shamanka_EN.SG -2.169
  267. gendstat: WSHG Steppe_Eneolithic -0.013
  268. gendstat: WSHG Caucasus_Eneolithic -0.312
  269. gendstat: WSHG Kazakhstan_Botai.SG -3.077
  270. gendstat: Onge.DG Russia_Shamanka_EN.SG -0.988
  271. gendstat: Onge.DG Steppe_Eneolithic 1.119
  272. gendstat: Onge.DG Caucasus_Eneolithic 0.686
  273. gendstat: Onge.DG Kazakhstan_Botai.SG -1.203
  274. gendstat: Russia_Shamanka_EN.SG Steppe_Eneolithic 2.278
  275. gendstat: Russia_Shamanka_EN.SG Caucasus_Eneolithic 1.573
  276. gendstat: Russia_Shamanka_EN.SG Kazakhstan_Botai.SG -0.556
  277. gendstat: Steppe_Eneolithic Caucasus_Eneolithic -0.347
  278. gendstat: Steppe_Eneolithic Kazakhstan_Botai.SG -2.725
  279. gendstat: Caucasus_Eneolithic Kazakhstan_Botai.SG -1.856
  280.  
  281. ## end of run
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